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SRX15324909: GSM6165354: wt-replicate NoD [NoD]; Homo sapiens; ncRNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 15.8M spots, 807.5M bases, 314.4Mb downloads

External Id: GSM6165354_r1
Submitted by: Genome Analysis Platform, CIC bioGUNE
Study: Detection of internal m7G modification in the human transcriptome in a quantitative manner and at single-nucleotide resolution
show Abstracthide Abstract
RNA modifications play an important role in regulating RNA stability and gene expression, however the development of reliable detection techniques has been a major burden in the field. Here, we describe two different methodologies for global identification of N-7-methylguanosine (m7G) in human tRNAs. An antibody and northdot blot based quantitative approach that allows global detection of m7G levels. And borohydride reduction sequencing (Bo-Seq), a chemically based approach that maps m7G modification at single nucleotide resolution. The specificity of Bo-Seq lies on RNA size-selection, optimized RNA scission using NaBH4, aniline and m7GTPs, and elimination of complex chemical steps or bioinformatic analysis included in similar methods, and reduces the protocol to four days. Bo-Seq and our antibody based approach are specifically developed for easily and globally detect tRNA m7G-methylation in human cells. We also validated METTL1 as the methyltransferase that methylates tRNAs in human cells. Overall design: Small RNA from prostate cancer cells DU145 were extrated. RNA were either non chemically treated or treated wih NaBH4 and aniline (BH4). Two replicates were used per condition. A total of 4 samples were sequenced.
Sample: wt-replicate NoD [NoD]
SAMN28522156 • SRS13053524 • All experiments • All runs
Organism: Homo sapiens
Library:
Name: GSM6165354
Instrument: Illumina HiSeq 2500
Strategy: ncRNA-Seq
Source: TRANSCRIPTOMIC
Selection: size fractionation
Layout: SINGLE
Construction protocol: Total RNA was extracted from cells. Small RNA was size-selected and treated or not treated with NaBH4+Aniline (that induces RNA chain cleavage at methylated guanosines). Sequencing libraries were prepared following the protocol included with the kit “NEXTflex™ Small RNA-Seq Kit v3,” (©Bioo Scientific Corp. Catalog #5132-05).
Runs: 1 run, 15.8M spots, 807.5M bases, 314.4Mb
Run# of Spots# of BasesSizePublished
SRR1926451115,832,867807.5M314.4Mb2024-04-10

ID:
21861752

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